[R] CRAN (and crantastic) updates this week

Crantastic cranatic at gmail.com
Mon Jun 4 00:40:05 CEST 2012 

CRAN (and crantastic) updates this week

New packages
------------

* anametrix (0.1)
  Maintainer: Roman Jugai
  Author(s): Roman Jugai
  License: LGPL
  http://crantastic.org/packages/anametrix

  Connects to Anametrix API and extracts data into R data structure

* assertive (0.1-4)
  Maintainer: Richard Cotton
  Author(s): Richard Cotton [aut, cre]
  License: Unlimited
  http://crantastic.org/packages/assertive

  assertive contains lots of is_* functions to check the state of your
  variables, and assert_* functions to throw errors if they aren't in
  the right form.

* crblocks (0.5-0)
  Maintainer: David Allingham
  Author(s): David Allingham, D.J. Best
  License: GPL (>= 2)
  http://crantastic.org/packages/crblocks

  Implements a statistical test for comparing bar plots or histograms of
  categorical data derived from a randomized block repeated measures
  layout.

* deltaPlotR (1.0)
  Maintainer: David Magis
  Author(s): David Magis (U Liege), Bruno Facon (Univ Lille-Nord de France)
  License: GPL (>= 2)
  http://crantastic.org/packages/deltaPlotR

  The deltaPlot package proposes an implementation of Angoff's elta Plot
  method to detect dichotomous DIF. Several detection thresholds are
  included, either from multivariate normality asumption, random
  simulation, or by prior determination. Item purification is
  supported.

* disp2D (1.0)
  Maintainer: Guillermo Ayala
  Author(s): Guillermo Ayala
  License: GPL-2
  http://crantastic.org/packages/disp2D

  An implementation of two exact algorithms for testing the Hausdorff
  and simplex dispersion orderings

* foodweb (1-0)
  Maintainer: Giselle Perdomo
  Author(s): Giselle Perdomo
  License: GPL (>= 2)
  http://crantastic.org/packages/foodweb

  Calculates twelve commonly-used, basic measures of food web network
  structure from binary, predator-prey matrices: species richness,
  connectance, total number of links, link density, number of trophic
  positions, predator:prey ratio, and fraction of carnivores,
  herbivores, top species and intermediate species.  Employs food web
  language in the code and output, translates between a couple of
  common food web formats, can handle food webs consisting of multiple
  levels, and can automate the analysis for a large number of webs.
  The program produces 3-dimensional graphs of high quality that can
  be customized by the user.

* genomicper (1.3)
  Maintainer: Claudia Cabrera
  Author(s): Claudia P.Cabrera-Cardenas,Pau Navarro,Chris S.Haley
  License: GPL-2
  http://crantastic.org/packages/genomicper

  Circular genomic permutation approach uses GWAS results to establish
  the significance of pathway/gene-set associations whilst accounting
  for genomic structure. All SNPs in the GWAS are placed in a
  'circular genome' according to their location. Then the complete set
  of SNP association p-values are permuted by rotation with respect to
  the SNPs' genomic locations

* hiPOD (1.0)
  Maintainer: Wei E. Liang
  Author(s): Wei E. Liang
  License: GPL-3
  http://crantastic.org/packages/hiPOD

  Based on hierarchical modeling, this package provides a few practical
  functions to find and present the optimal designs for a pooled NGS
  design.

* intpoint (1.0)
  Maintainer: Alejandro Quintela del Rio
  Author(s): Alejandro Quintela del Rio
  License: GPL-2
  http://crantastic.org/packages/intpoint

  Solves linear programming problems by the interior point method, and
  plots the graphical solution of a linear programming problem of two
  dimensions.

* jmec (1.0-3)
  Maintainer: Willem M. van der Wal
  Author(s): Willem M. van der Wal <w.m.vd.wal at umcutrecht.nl>
  License: GPL (>= 2)
  http://crantastic.org/packages/jmec

  Fit joint model for event and censoring, with cluster-level frailties,
  according to Huang & Wolfe (2002).

* knnGarden (1.0)
  Maintainer: Boxian Wei
  Author(s): Boxian Wei & Fan Yang & Xinmiao Wang & Yanni Ge
  License: GPL (>= 2)
  http://crantastic.org/packages/knnGarden

  Muti-distance based k-Nearest Neighbors Classification with K
  Threshold Value Check and Same K_i Problem Dealing, Missing
  Observations Filling

* longclust (1.1)
  Maintainer: K. Raju Jampani
  Author(s): P. D. McNicholas, K. Raju Jampani and Sanjeena Subedi
  License: GPL-2
  http://crantastic.org/packages/longclust

  Clustering or classification of longitudinal data based on a mixture
  of multivariate t or Gaussian distributions with a
  Cholesky-decomposed covariance structure.

* OIdata (1.0)
  Maintainer: Andrew P Bray
  Author(s): Andrew P Bray and David M Diez
  License: GPL-2 | GPL-3
  http://crantastic.org/packages/OIdata

  A collection of data sets from several sources that may be useful for
  teaching, practice, or other purposes. Functions have also been
  included to assist in the retrieval of table data from websites or
  in visualizing sample data.

* ParamHelpers (1.0-55)
  Maintainer: Bernd Bischl
  Author(s): Bernd Bischl <bernd_bischl at gmx.net>, Patrick Koch
             <patrick.koch at fh-koeln.de>
  License: BSD
  http://crantastic.org/packages/ParamHelpers

  A small package containing useful functions for parameter descriptions
  and operations in black-optimization, tuning and machine learning.

* pkgmaker (0.5.1)
  Maintainer: Renaud Gaujoux
  Author(s): Renaud Gaujoux
  License: GPL (>= 2)
  http://crantastic.org/packages/pkgmaker

  This package provides some low-level utilities to use for package
  development. It currently provides managers for multiple package
  specific options and registries, vignette, unit test and bibtex
  related utilities.  It serves as a base package for packages like
  NMF, RcppOctave, doRNG, and as an incubator package for other
  general purposes utilities, that will eventually be packaged
  separately.  It is still under heavy development and changes in the
  interface(s) are more than likely to happen.

* qtlhot (0.5.2)
  Maintainer: Brian S. Yandell
  Author(s): Elias Chaibub Neto <echaibub at hotmail.com> and Brian S Yandell
             <byandell at wisc.edu>
  License: GPL (>= 2)
  http://crantastic.org/packages/qtlhot

  Functions to Determine significance of co-mapping trait hotspots

* visreg (1.0-0)
  Maintainer: Patrick Breheny
  Author(s): Patrick Breheny, Woodrow Burchett
  License: GPL-2
  http://crantastic.org/packages/visreg

  Provides convenient interface for constructing plots to visualize the
  fit of regression models arising from a wide variety of models in R
  (lm, glm, coxph, rlm, gam, locfit, etc.)


Updated packages
----------------

adehabitatHR (0.4.2), adehabitatHS (0.3.5), adehabitatLT (0.3.6),
adehabitatMA (0.3.4), aqfig (0.3), ARTIVA (1.1), BAS (1.0),
BatchExperiments (1.0-528), BatchJobs (1.0-527), bfp (0.0-25), censReg
(0.5-12), cloudRmpi (1.2.1), copula (0.99-2), DAAG (1.13), Devore6
(0.6-0), DiceKriging (1.3.3), dmt (0.8.10), ebdbNet (1.2.2), epiR
(0.9-43), ergm (3.0-3), ExomeCNV (1.3), fanc (1.1), fanc (1.0), ftsa
(3.3), GGally (0.3.3), gmm (1.4-1), googleVis (0.2.16), gss (2.0-10),
GWAtoolbox (2.1.2), howmany (0.3-1), iRegression (1.1), isdals
(1.0-6), ismev (1.38), IsotopeR (0.4.3), kulife (0.1-11), laeken
(0.3.3), lgcp (0.9-4-2), linkcomm (1.0-5), LMERConvenienceFunctions
(1.6.8.3), lmtest (0.9-30), longclust (1.1), longpower (1.0-2), lqmm
(1.01), mada (0.4.1), MAMS (0.2), markdown (0.5), MARSS (2.9), mhurdle
(0.1-2), micEcon (0.6-10), mitools (2.2), mixOmics (4.0-2), Mobilize
(2.11-1), msir (1.1), ncf (1.1-4), nortest (1.0-2), Ohmage (2.11-1),
pencopula (0.3.2), plus (1.0), quantregForest (0.2-3), Rcapture
(1.3-1), relaxo (0.1-2), rEMM (1.0-6), rfPermute (1.2), rgr (1.1.7),
Rook (1.0-5), rpart (3.1-53), Rssa (0.9.2), scuba (1.5-0), spacom
(0.9-4), spsurvey (2.4), stabledist (0.6-4), strucchange (1.4-7),
support.CEs (0.2-2), SYNCSA (1.2.1), systemfit (1.1-12), TDMR (0.3.1),
WriteXLS (2.1.1)

New reviews
-----------

* gtools, by jenifferhomes
  http://crantastic.org/reviews/164

* RSiteSearch, by jenifferhomes
  http://crantastic.org/reviews/163

* LogicForest, by jenifferhomes
  http://crantastic.org/reviews/162

* TradeStrategyAnalyzer, by jenifferhomes
  http://crantastic.org/reviews/161

* DCluster, by jenifferhomes
  http://crantastic.org/reviews/160

* ICSNP, by jenifferhomes
  http://crantastic.org/reviews/159

* JavaGD, by jenifferhomes
  http://crantastic.org/reviews/158

* quantmod, by jenifferhomes
  http://crantastic.org/reviews/157

* Defaults, by jenifferhomes
  http://crantastic.org/reviews/156

* wordnet, by jenifferhomes
  http://crantastic.org/reviews/155

* ggmap, by fiutzi
  http://crantastic.org/reviews/154

* boot, by jenifferhomes
  http://crantastic.org/reviews/153

* ccgarch, by jenifferhomes
  http://crantastic.org/reviews/152

* data.table, by jenifferhomes
  http://crantastic.org/reviews/151

* GEVcdn, by jenifferhomes
  http://crantastic.org/reviews/150



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